X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=clustersplitcommand.h;h=e1f17b1bd0b8c4088d5deb3c06691fb3ccf26999;hb=70491a12902e89b85cfa6b44a7b7fbe066ee2ac1;hp=936ae6f69ce94877b60b9f99219423db8b526d73;hpb=90708fe9701e3827e477c82fb3652539c3bf2a0d;p=mothur.git

diff --git a/clustersplitcommand.h b/clustersplitcommand.h
index 936ae6f..e1f17b1 100644
--- a/clustersplitcommand.h
+++ b/clustersplitcommand.h
@@ -35,8 +35,9 @@ public:
 	vector<string> setParameters();
 	string getCommandName()			{ return "cluster.split";		}
 	string getCommandCategory()		{ return "Clustering";			}
-	string getOutputFileNameTag(string, string);
+	
 	string getHelpString();	
+    string getOutputPattern(string);	
 	string getCitation() { return "Schloss PD, Westcott SL (2011). Assessing and improving methods used in OTU-based approaches for 16S rRNA gene sequence analysis. Appl Environ Microbiol 77:3219. \nhttp://www.mothur.org/wiki/Cluster.split"; }
 	string getDescription()		{ return "splits your sequences by distance or taxonomy then clusters into OTUs"; }
 	
@@ -50,7 +51,7 @@ private:
 	string method, fileroot, tag, outputDir, phylipfile, columnfile, namefile, countfile, distfile, format, showabund, timing, splitmethod, taxFile, fastafile;
 	double cutoff, splitcutoff;
 	int precision, length, processors, taxLevelCutoff;
-	bool print_start, abort, hard, large, classic;
+	bool print_start, abort, hard, large, classic, runCluster;
 	time_t start;
 	ofstream outList, outRabund, outSabund;